Setup

FastQC Summary

Summary statistics for all libraries
Filename Total Flagged As Poor Quality Sequence Length %GC
179_F_CB2YGANXX_ATCACG_L001Aligned.sortedByCoord.out.bam 148,318,150 0 32-100 55
187_F_CB2YGANXX_CGATGT_L001Aligned.sortedByCoord.out.bam 141,239,106 0 32-100 54
188_F_CB2YGANXX_TTAGGC_L001Aligned.sortedByCoord.out.bam 70,867,287 0 32-100 51
190_F_CB2YGANXX_TGACCA_L001Aligned.sortedByCoord.out.bam 75,306,558 0 32-100 52
192_F_CB2YGANXX_ACAGTG_L001Aligned.sortedByCoord.out.bam 71,199,375 0 32-100 54
194_F_CB2YGANXX_GCCAAT_L001Aligned.sortedByCoord.out.bam 70,486,731 0 33-100 51

Read Totals

Library Sizes ranged between 70,486,731 and 148,318,150 reads.

Read totals for each library. Duplicated reads are conventionally an high overestimate at this point.

FastQC Summary

Summary of FastQC flags for each parameter

Per Base Sequence Quality

Heatmap showing mean base qualities for each library

Per Sequence Quality Scores

Heatmap showing mean sequence qualities for each library

Per Base Sequence Content

Heatmap of summed base distributions along each read

Per Sequence GC Content

GC Content Heatmap normalised to theoretical GC content in the Hsapiens Transcriptome

GC Content Distributions for all reads showing theoretical GC content from the Hsapiens Transcriptome

Sequence Length Distribution

Sequence Duplication Levels

Overrepresented Summary

Total overrepresented sequences for each library

Overrepresented Sequences

## The Overrepresented_sequences module was empty in 188_F_CB2YGANXX_TTAGGC_L001Aligned.sortedByCoord.out_fastqc.zip
Summary of Overrepresented Sequences in all files. A maximum of 30 seqences are shown.
Sequence Total Present In Overall Percentage Max_Percentage Possible_Source
CTGTATTGTTATTTTTCGTCACTACCTCCCCGGGTCGGGAGTGGGTAATT 6,738,105 5 1.17% 2.38% No Hit
GTCGGCATGTATTAGCTCTAGAATTACCACAGTTATCCAAGTAGGAGAGG 4,939,056 2 0.86% 2.01% No Hit
GGCAGACGTTCGAATGGGTCGTCGCCGCCACGGAGGGCGTGCGATCGGCC 4,233,273 2 0.73% 2.35% No Hit
GCCTGCTGCCTTCCTTGGATGTGGTAGCCGTTTCTCAGGCTCCCTCTCCG 4,106,172 3 0.71% 1.63% No Hit
GTCCTGTATTGTTATTTTTCGTCACTACCTCCCCGGGTCGGGAGTGGGTA 4,020,669 3 0.70% 1.51% No Hit
CTCTTAATCATGGCCTCAGTTCCGAAAACCAACAAAATAGAACCGCGGTC 3,028,827 4 0.52% 1.08% No Hit
CCCGTCGGCATGTATTAGCTCTAGAATTACCACAGTTATCCAAGTAGGAG 2,334,620 2 0.40% 0.97% No Hit
CTTCCGTCAATTCCTTTAAGTTTCAGCTTTGCAACCATACTCCCCCCGGA 1,950,954 3 0.34% 0.84% No Hit
CGCCTGCTGCCTTCCTTGGATGTGGTAGCCGTTTCTCAGGCTCCCTCTCC 1,910,212 3 0.33% 0.77% No Hit
CTGCTGCCTTCCTTGGATGTGGTAGCCGTTTCTCAGGCTCCCTCTCCGGA 1,830,172 2 0.32% 0.81% No Hit
CCTGTATTGTTATTTTTCGTCACTACCTCCCCGGGTCGGGAGTGGGTAAT 1,587,783 3 0.27% 0.64% No Hit
CCCGGGGCCGCAAGTGCGTTCGAAGTGTCGATGATCAATGTGTCCTGCAA 1,532,266 4 0.27% 0.53% No Hit
CCGTCGGCATGTATTAGCTCTAGAATTACCACAGTTATCCAAGTAGGAGA 1,511,953 2 0.26% 0.61% No Hit
GCCTCAGTTCCGAAAACCAACAAAATAGAACCGCGGTCCTATTCCATTAT 1,443,454 4 0.25% 0.46% No Hit
CTCATTCCAATTACAGGGCCTCGAAAGAGTCCTGTATTGTTATTTTTCGT 1,168,037 2 0.20% 0.57% No Hit
ACTCATTCCAATTACAGGGCCTCGAAAGAGTCCTGTATTGTTATTTTTCG 1,094,465 3 0.19% 0.49% No Hit
CTCTGGTCCGTCTTGCGCCGGTCCAAGAATTTCACCTCTAGCGGCGCAAT 1,086,065 2 0.19% 0.58% No Hit
CTTGATTAATGAAAACATTCTTGGCAAATGCTTTCGCTCTGGTCCGTCTT 1,075,214 1 0.19% 0.76% No Hit
CCCGAGGTTATCTAGAGTCACCAAAGCCGCCGGCGCCCGACCCCCGGCCG 1,070,882 2 0.19% 0.58% No Hit
GTCCCTCTTAATCATGGCCTCAGTTCCGAAAACCAACAAAATAGAACCGC 999,226 3 0.17% 0.47% No Hit
CCACAGTTATCCAAGTAGGAGAGGAGCGAGCGACCAAAGGAACCATAACT 996,717 1 0.17% 0.71% No Hit
GTATTGTTATTTTTCGTCACTACCTCCCCGGGTCGGGAGTGGGTAATTTG 961,295 3 0.17% 0.37% No Hit
GCCCTTCCGTCAATTCCTTTAAGTTTCAGCTTTGCAACCATACTCCCCCC 923,427 2 0.16% 0.41% No Hit
CCCGGGTCGGGAGTGGGTAATTTGCGCGCCTGCTGCCTTCCTTGGATGTG 916,757 2 0.16% 0.42% No Hit
GTGCCCTTCCGTCAATTCCTTTAAGTTTCAGCTTTGCAACCATACTCCCC 889,050 1 0.15% 0.60% No Hit
GGACTCATTCCAATTACAGGGCCTCGAAAGAGTCCTGTATTGTTATTTTT 803,404 2 0.14% 0.39% No Hit
CACAGTTATCCAAGTAGGAGAGGAGCGAGCGACCAAAGGAACCATAACTG 788,484 1 0.14% 0.56% No Hit
GGGGGGTCAGCGCCCGTCGGCATGTATTAGCTCTAGAATTACCACAGTTA 749,278 1 0.13% 0.53% No Hit
CGGGGCCGCAAGTGCGTTCGAAGTGTCGATGATCAATGTGTCCTGCAATT 747,903 4 0.13% 0.25% No Hit
GTTCGAAGTGTCGATGATCAATGTGTCCTGCAATTCACATTAATTCTCGC 713,212 3 0.12% 0.25% No Hit

Adapter Content

Universal Adapter Content

Kmer Content

## The Kmer_Content module was missing from 179_F_CB2YGANXX_ATCACG_L001Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 187_F_CB2YGANXX_CGATGT_L001Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 188_F_CB2YGANXX_TTAGGC_L001Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 190_F_CB2YGANXX_TGACCA_L001Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 192_F_CB2YGANXX_ACAGTG_L001Aligned.sortedByCoord.out_fastqc.zip
## The Kmer_Content module was missing from 194_F_CB2YGANXX_GCCAAT_L001Aligned.sortedByCoord.out_fastqc.zip
## No Kmers were detected by FastQC